d1m98a1

Domain	SCOPid	Range	SCOP Class	SCOP Fold	SCOP Superfamily	SCOP family	Protein
1m98_A1	d1m98a1	A2-A90	All alpha proteins	Orange carotenoid protein, N-terminal domain	Orange carotenoid protein, N-terminal domain	Orange carotenoid protein, N-terminal domain	Orange carotenoid protein, N-terminal domain
1m98_A2	d1m98a1	A91-A175	All alpha proteins	Orange carotenoid protein, N-terminal domain	Orange carotenoid protein, N-terminal domain	Orange carotenoid protein, N-terminal domain	Orange carotenoid protein, N-terminal domain

Alignment-based scores

Aligner	Aligned Length	Sequence Identity	RMSD	GDT-TS	COMPASS
manual	58	0.15517	1.98037	69.39655	-0.88002
dali	67	0.14925	2.47514	67.91045	-1.35582
tm	67	0.14925	2.38389	67.16418	-1.33623
fast	63	0.15873	2.28247	66.26984	-0.75767

In the alignments below, two upper-case letters are aligned, and two lower-case letters are NOT aligned. The superposition files are re-constructed from the corresponding alignments by minimizing the overall RMSD. In a PDB-format superposition file, the first domain is represented by chain S and the second domain is represented by chain A. The coordinates of the first domain are transformed, while the coordinates of the second domain are the same as in the original PDB file.

MANUAL alignment      superposition in PDB format     colored superposition in PyMol

1m98_A1   pftidtarsifpetlaadvvPATIARFKQLSAEDQLALIWFAYLEMGKTitiaa-pgaanMQFAENTLQEIRQMTPLQQTQAMCDLANRt--------------
1m98_A2   -------------------dTPICRTYASWSPNIKLGFWYELGRFMDQGlvapipegyklSANANAILVTIQGIDPGQQITVLRNCVVDmgfdtsklgsyqrva

DALI alignment      superposition in PDB format     colored superposition in PyMol

1m98_A1   pftidtarsifpetlaadvVPATIARFKQLSAEDQLALIWFAYLEMGKT--ITIAAPGaaNMQF-AENTLQEIRQMTPLQQTQAMCDLANR--------------t
1m98_A2   -------------------DTPICRTYASWSPNIKLGFWYELGRFMDQGlvAPIPEGY--KLSAnANAILVTIQGIDPGQQITVLRNCVVDmgfdtsklgsyqrva

TM alignment      superposition in PDB format     colored superposition in PyMol

1m98_A1   PFTIDTARSIFPETLAADVVPATIARFKQLSAEDQLALIWFAYLEMGKT--ITIAA-PGAANMQFAENTLQEIRQMTPLQQTQAMCDLANR---------------T
1m98_A2   -------------------DTPICRTYASWSPNIKLGFWYELGRFMDQGLVAPIPEGYK--LSANANAILVTIQGIDPGQQITVLRNCVVDMGFDTSKLGSYQRVA-

FAST alignment      superposition in PDB format     colored superposition in PyMol

1m98_A1   PFTIDTARSIFPETLAADVVP--ATIARFKQLSAEDQLALIWFAYLEMGK--TITI-AAPGAANM-QFAENTLQEIRQMTPLQQTQAMCDLANRT----------------
1m98_A2   ---------------------DTPICRTYASWSPNIKLGFWYELGRFMDQGLVAPIPEGYKL---SANANAILVTIQGIDPGQQITVLRNCVV--DMGFDTSKLGSYQRVA